IntEREst
This is the development version of IntEREst; for the stable release version, see IntEREst.
Intron-Exon Retention Estimator
Bioconductor version: Development (3.21)
This package performs Intron-Exon Retention analysis on RNA-seq data (.bam files).
Author: Ali Oghabian <Ali.Oghabian at Helsinki.Fi>, Dario Greco <dario.greco at helsinki.fi>, Mikko Frilander <Mikko.Frilander at helsinki.fi>
Maintainer: Ali Oghabian <Ali.Oghabian at Helsinki.Fi>
Citation (from within R, enter
citation("IntEREst")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("IntEREst")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | Alignment, AlternativeSplicing, Coverage, DifferentialExpression, DifferentialSplicing, ImmunoOncology, Normalization, RNASeq, Sequencing, Software |
| Version | 1.31.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (7.5 years) |
| License | GPL-2 |
| Depends | R (>= 3.5.0), GenomicRanges, Rsamtools, SummarizedExperiment, edgeR, S4Vectors, GenomicFiles |
| Imports | seqLogo, Biostrings, GenomicFeatures(>= 1.39.4), txdbmaker, IRanges, seqinr, graphics, grDevices, stats, utils, grid, methods, DBI, RMariaDB, GenomicAlignments, BiocParallel, BiocGenerics, DEXSeq, DESeq2 |
| System Requirements | |
| URL |
See More
| Suggests | clinfun, knitr, rmarkdown, BSgenome.Hsapiens.UCSC.hg19 |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/IntEREst |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/IntEREst |
| Package Short Url | https://bioconductor.org/packages/IntEREst/ |
| Package Downloads Report | Download Stats |